A survey of best practices for RNA-seq data analysis
Abstract RNA-sequencing (RNA-seq) has a wide variety of applications, but no single
analysis pipeline can be used in all cases. We review all of the major steps in RNA-seq data …
analysis pipeline can be used in all cases. We review all of the major steps in RNA-seq data …
Cross-tissue organization of the fibroblast lineage
Fibroblasts are non-haematopoietic structural cells that define the architecture of organs,
support the homeostasis of tissue-resident cells and have key roles in fibrosis, cancer …
support the homeostasis of tissue-resident cells and have key roles in fibrosis, cancer …
Cistrome Data Browser: expanded datasets and new tools for gene regulatory analysis
Abstract The Cistrome Data Browser (DB) is a resource of human and mouse cis-regulatory
information derived from ChIP-seq, DNase-seq and ATAC-seq chromatin profiling assays …
information derived from ChIP-seq, DNase-seq and ATAC-seq chromatin profiling assays …
A major chromatin regulator determines resistance of tumor cells to T cell–mediated killing
Many human cancers are resistant to immunotherapy, for reasons that are poorly
understood. We used a genome-scale CRISPR-Cas9 screen to identify mechanisms of …
understood. We used a genome-scale CRISPR-Cas9 screen to identify mechanisms of …
EZH2 noncanonically binds cMyc and p300 through a cryptic transactivation domain to mediate gene activation and promote oncogenesis
Canonically, EZH2 serves as the catalytic subunit of PRC2, which mediates H3K27me3
deposition and transcriptional repression. Here, we report that in acute leukaemias, EZH2 …
deposition and transcriptional repression. Here, we report that in acute leukaemias, EZH2 …
Long noncoding RNA: a crosslink in biological regulatory network
Y Zhang, Y Tao, Q Liao - Briefings in bioinformatics, 2018 - academic.oup.com
Long noncoding RNAs (lncRNAs) had been defined as a novel class of functional RNAs
longer than 200 nucleotides around a decade ago. It is widely acknowledged that lncRNAs …
longer than 200 nucleotides around a decade ago. It is widely acknowledged that lncRNAs …
[HTML][HTML] Gene regulation by gonadal hormone receptors underlies brain sex differences
Oestradiol establishes neural sex differences in many vertebrates 1, 2, 3 and modulates
mood, behaviour and energy balance in adulthood 4, 5, 6, 7, 8. In the canonical pathway …
mood, behaviour and energy balance in adulthood 4, 5, 6, 7, 8. In the canonical pathway …
The androgen receptor is a tumor suppressor in estrogen receptor–positive breast cancer
The role of the androgen receptor (AR) in estrogen receptor (ER)-α-positive breast cancer is
controversial, constraining implementation of AR-directed therapies. Using a diverse …
controversial, constraining implementation of AR-directed therapies. Using a diverse …
Cistrome Data Browser: a data portal for ChIP-Seq and chromatin accessibility data in human and mouse
Chromatin immunoprecipitation, DNase I hypersensitivity and transposase-accessibility
assays combined with high-throughput sequencing enable the genome-wide study of …
assays combined with high-throughput sequencing enable the genome-wide study of …
F. nucleatum targets lncRNA ENO1-IT1 to promote glycolysis and oncogenesis in colorectal cancer
J Hong, F Guo, SY Lu, C Shen, D Ma, X Zhang, Y **e… - Gut, 2021 - gut.bmj.com
Objective Microbiota disorder promotes chronic inflammation and carcinogenesis. High
glycolysis is associated with poor prognosis in patients with colorectal cancer (CRC) …
glycolysis is associated with poor prognosis in patients with colorectal cancer (CRC) …